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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ), 'gf_id' => 'HOM05D001031', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001031' ), 'data_identifier' => 'HOM05D001031', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001031', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '588', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p14120' => 'bna', 'A03p36450' => 'bna', 'A03p53860' => 'bna', 'A03p54690' => 'bna', 'A03p68300' => 'bna', 'A05p40180' => 'bna', 'A09p00160' => 'bna', 'A09p13320' => 'bna', 'A09p27180' => 'bna', 'Aa31LG2G480' => 'aar', 'Aa31LG5G11340' => 'aar', 'Aa31LG5G18660' => 'aar', 'Aa31LG5G18670' => 'aar', 'Aa31LG5G820' => 'aar', 'Aa31LG6G4970' => 'aar', 'Aa31LG6G6950' => 'aar', 'Aa31LG9G10520' => 'aar', 'Actinidia02061' => 'ach', 'Actinidia25379' => 'ach', 'Actinidia29009' => 'ach', 'Actinidia34506' => 'ach', 'Ah.05g179940' => 'amhyb', 'Ah.06g186860' => 'amhyb', 'Ah.08g219440' => 'amhyb', 'Ah.08g219450' => 'amhyb', 'Ah.12g057840' => 'amhyb', 'AL1G18010' => 'aly', 'AL2G12640' => 'aly', 'AL3G19580' => 'aly', 'AL6G46720' => 'aly', 'AL6G52220' => 'aly', 'AL7G29630' => 'aly', 'AL7G30620' => 'aly', 'AL8G33770' => 'aly', 'Aqoxy4G03310' => 'aox', 'Aqoxy5G04031' => 'aox', 'Aqoxy7G00211' => 'aox', 'Aqoxy7G00503' => 'aox', 'arahy.Tifrunner.gnm1.ann1.4YMZ2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.64CVV3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J8U28E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K5BFLR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU2J7N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZRY0WK' => 'arhy', 'AT1G62981' => 'ath', 'AT3G08600' => 'ath', 'AT4G01140' => 'ath', 'AT4G11950' => 'ath', 'AT4G22900' => 'ath', 'AT4G23720' => 'ath', 'ATR0661G515' => 'atr', 'ATR0751G099' => 'atr', 'ATR1127G030' => 'atr', 'ATR1127G152' => 'atr', 'Atru.chr5.610' => 'acertr', 'Atru.chr8.62' => 'acertr', 'Atru.chr9.1503' => 'acertr', 'AUR62004440' => 'cqu', 'AUR62010564' => 'cqu', 'AUR62017325' => 'cqu', 'AUR62035475' => 'cqu', 'AUR62042835' => 'cqu', 'BcaB01g01694' => 'bca', 'BcaB04g18585' => 'bca', 'BcaC01g04186' => 'bca', 'BcaC02g10410' => 'bca', 'BcaC03g14568' => 'bca', 'BcaC04g21179' => 'bca', 'BcaC04g21181' => 'bca', 'BcaC04g24128' => 'bca', 'BcaC06g31926' => 'bca', 'BcaNung01018' => 'bca', 'BcaNung01662' => 'bca', 'BcaNung01663' => 'bca', 'BcaNung03186' => 'bca', 'BcaNung03188' => 'bca', 'BolC2t08145H' => 'bol', 'BolC3t16677H' => 'bol', 'BolC4t24453H' => 'bol', 'BolC5t34571H' => 'bol', 'BolC7t45720H' => 'bol', 'BolC7t45801H' => 'bol', 'BolC9t53013H' => 'bol', 'BolC9t54494H' => 'bol', 'BolC9t56294H' => 'bol', 'BraA01t02639Z' => 'bra', 'BraA02t06272Z' => 'bra', 'BraA03t12813Z' => 'bra', 'BraA03t14455Z' => 'bra', 'BraA03t14536Z' => 'bra', 'BraA09t35744Z' => 'bra', 'BraA09t36981Z' => 'bra', 'BraA09t38286Z' => 'bra', 'C02p20160' => 'bna', 'C03p44070' => 'bna', 'C04p29190' => 'bna', 'C05p59260' => 'bna', 'C07p52260' => 'bna', 'C07p53030' => 'bna', 'C09p00790' => 'bna', 'C09p15820' => 'bna', 'C09p34500' => 'bna', 'CAN.G2.21' => 'can', 'CAN.G309.37' => 'can', 'CAN.G44.16' => 'can', 'CAN.G504.91' => 'can', 'CAN.G532.58' => 'can', 'CAN.G532.59' => 'can', 'CAN.G62.54' => 'can', 'CAN.G62.55' => 'can', 'CAN.G62.56' => 'can', 'CAN.G659.22' => 'can', 'CAN.G803.34' => 'can', 'CAN.G981.60' => 'can', 'CAN.G986.53' => 'can', 'CANSAT21G0026' => 'cansat', 'CANSAT21G0739' => 'cansat', 'CANSAT54G1007' => 'cansat', 'CANSAT56G2297' => 'cansat', 'CARHR048660' => 'chi', 'CARHR082900' => 'chi', 'CARHR229940' => 'chi', 'CARHR231110' => 'chi', 'CARHR249140' => 'chi', 'CARHR254340' => 'chi', 'Carub.0002s0202' => 'cru', 'Carub.0003s0773' => 'cru', 'Carub.0006s3105' => 'cru', 'Carub.0006s3620' => 'cru', 'Carub.0007s1740' => 'cru', 'Carub.0007s1838' => 'cru', 'Ca_07794_v3' => 'car', 'Ca_15084_v3' => 'car', 'Ca_17503_v3' => 'car', 'Ca_25858_v3' => 'car', 'CBR_g28703' => 'cbr', 'Cc01_g15490' => 'ccan', 'Cc02_g38870' => 'ccan', 'Cc06_g00190' => 'ccan', 'Cc08_g13750' => 'ccan', 'CDE04G3313' => 'cde', 'CDE07G1426' => 'cde', 'CDE12G0575' => 'cde', 'CDE12G0837' => 'cde', 'Cfa003842' => 'cfa', 'Cfa011855' => 'cfa', 'Cfa012073' => 'cfa', 'Cfa012284' => 'cfa', 'Cfa016999' => 'cfa', 'Ciclev10012288m.g' => 'ccl', 'Ciclev10013895m.g' => 'ccl', 'Ciclev10021289m.g' => 'ccl', 'Ciclev10023512m.g' => 'ccl', 'Ciclev10024134m.g' => 'ccl', 'CiPaw.01G070800' => 'cil', 'CiPaw.09G223500' => 'cil', 'CiPaw.10G166800' => 'cil', 'CiPaw.11G125900' => 'cil', 'CiPaw.11G143100' => 'cil', 'CiPaw.12G100700' => 'cil', 'CiPaw.13G060500' => 'cil', 'ClCG01G003310' => 'cla', 'ClCG04G006160' => 'cla', 'ClCG06G003280' => 'cla', 'ClCG07G014790' => 'cla', 'COL.COLO4_05682' => 'col', 'COL.COLO4_06344' => 'col', 'COL.COLO4_09275' => 'col', 'COL.COLO4_21744' => 'col', 'COL.COLO4_23797' => 'col', 'Cpa.g.sc0.68' => 'cpa', 'Cpa.g.sc122.19' => 'cpa', 'Cpa.g.sc184.2' => 'cpa', 'Cpa.g.sc29.38' => 'cpa', 'CsaV3_4G006320' => 'csa', 'CsaV3_4G027400' => 'csa', 'CsaV3_5G003390' => 'csa', 'CsaV3_6G001000' => 'csa', 'CSS0000069' => 'camsi', 'CSS0005630' => 'camsi', 'CSS0014589' => 'camsi', 'CSS0015581' => 'camsi', 'CSS0032313' => 'camsi', 'CSS0037610' => 'camsi', 'CSS0037662' => 'camsi', 'CSS0040317' => 'camsi', 'DCAR_000892' => 'dca', 'DCAR_005373' => 'dca', 'DCAR_006960' => 'dca', 'DCAR_008647' => 'dca', 'DCAR_018585' => 'dca', 'DCAR_023960' => 'dca', 'Dinv16939' => 'din', 'Dinv28754' => 'din', 'Dinv32546' => 'din', 'Dinv39037' => 'din', 'Dinv43887' => 'din', 'Duzib068G0422' => 'dzi', 'Duzib084G0533' => 'dzi', 'Duzib151G0836' => 'dzi', 'Duzib205G0348' => 'dzi', 'Duzib205G1613' => 'dzi', 'Duzib268G0351' => 'dzi', 'Duzib268G1251' => 'dzi', 'ECA236G0626' => 'eca', 'ECA240G4149' => 'eca', 'ECA246G0012' => 'eca', 'ECA246G0805' => 'eca', 'ECA247G2060' => 'eca', 'ECA248G0606' => 'eca', 'ECA248G2144' => 'eca', 'EL10Ac1g00322' => 'bvu', 'EL10Ac4g08549' => 'bvu', 'EL10Ac5g12687' => 'bvu', 'Eucgr.A00808' => 'egr', 'Eucgr.D01780' => 'egr', 'Eucgr.D01942' => 'egr', 'Eucgr.D02340' => 'egr', 'Eucgr.K01300' => 'egr', 'FAN01G1418' => 'fan', 'FAN02G4181' => 'fan', 'FAN03G1484' => 'fan', 'FAN04G0527' => 'fan', 'FAN04G0816' => 'fan', 'FAN06G1625' => 'fan', 'FAN06G2705' => 'fan', 'FAN06G4913' => 'fan', 'FAN08G2622' => 'fan', 'FAN09G0294' => 'fan', 'FAN10G0818' => 'fan', 'FAN10G3247' => 'fan', 'FAN13G1297' => 'fan', 'FAN13G2178' => 'fan', 'FAN13G2932' => 'fan', 'FAN14G3272' => 'fan', 'FAN18G1936' => 'fan', 'FAN18G3641' => 'fan', 'FAN25G0262' => 'fan', 'FvH4_1g25743' => 'fve', 'FvH4_2g31701' => 'fve', 'FvH4_3g04260' => 'fve', 'FvH4_5g01210' => 'fve', 'FvH4_5g03780' => 'fve', 'FvH4_6g09410' => 'fve', 'FvH4_7g15770' => 'fve', 'Glyma.02G237900' => 'gma', 'Glyma.03G001000' => 'gma', 'Glyma.04G124500' => 'gma', 'Glyma.05G213900' => 'gma', 'Glyma.06G313800' => 'gma', 'Glyma.06G313900' => 'gma', 'Glyma.07G060600' => 'gma', 'Glyma.08G020400' => 'gma', 'Glyma.09G271500' => 'gma', 'Glyma.11G200500' => 'gma', 'Glyma.16G029200' => 'gma', 'Glyma.16G221400' => 'gma', 'Glyma.18G050200' => 'gma', 'Glyma.18G217800' => 'gma', 'Gohir.A02G102901' => 'ghi', 'Gohir.A08G177100' => 'ghi', 'Gohir.A09G193700' => 'ghi', 'Gohir.A10G152100' => 'ghi', 'Gohir.A12G110500' => 'ghi', 'Gohir.A12G223700' => 'ghi', 'Gohir.D03G081000' => 'ghi', 'Gohir.D08G195400' => 'ghi', 'Gohir.D09G187900' => 'ghi', 'Gohir.D10G114200' => 'ghi', 'Gohir.D12G113500' => 'ghi', 'Gohir.D12G226300' => 'ghi', 'Gorai.003G082800' => 'gra', 'Gorai.004G206200' => 'gra', 'Gorai.006G210700' => 'gra', 'Gorai.008G123100' => 'gra', 'Gorai.008G242300' => 'gra', 'Gorai.011G125900' => 'gra', 'GSVIVG01019888001' => 'vvi', 'HanXRQChr01g0000411' => 'han', 'HanXRQChr03g0084101' => 'han', 'HanXRQChr04g0096741' => 'han', 'HanXRQChr06g0170481' => 'han', 'HanXRQChr08g0231181' => 'han', 'HanXRQChr10g0286181' => 'han', 'HanXRQChr11g0327581' => 'han', 'HanXRQChr11g0345061' => 'han', 'HanXRQChr11g0353051' => 'han', 'HanXRQChr13g0415771' => 'han', 'HanXRQChr15g0464531' => 'han', 'HanXRQChr15g0489251' => 'han', 'HanXRQChr17g0533821' => 'han', 'Haze_08700' => 'cav', 'Haze_08986' => 'cav', 'Haze_15609' => 'cav', 'Haze_21229' => 'cav', 'Haze_24489' => 'cav', 'Hma1.2p1_0170F.1_g075360' => 'hma', 'Hma1.2p1_0174F.1_g076620' => 'hma', 'Hma1.2p1_0216F.1_g091380' => 'hma', 'Hma1.2p1_0397F.1_g143800' => 'hma', 'HPP92_018082' => 'vpl', 'HPP92_019760' => 'vpl', 'HPP92_027307' => 'vpl', 'Lalb_Chr01g0023961' => 'lal', 'Lalb_Chr04g0254601' => 'lal', 'Lalb_Chr05g0224331' => 'lal', 'Lalb_Chr07g0195801' => 'lal', 'Lalb_Chr10g0100151' => 'lal', 'Lalb_Chr12g0210701' => 'lal', 'Lalb_Chr15g0085641' => 'lal', 'Lalb_Chr16g0390401' => 'lal', 'Lalb_Chr17g0342231' => 'lal', 'Lalb_Chr18g0048221' => 'lal', 'Lalb_Chr18g0054061' => 'lal', 'Lalb_Chr24g0400431' => 'lal', 'Lj1g0004998' => 'lja', 'Lj1P112T18' => 'lonja', 'Lj2C56T8' => 'lonja', 'Lj2P173T35' => 'lonja', 'Lj3g0015980' => 'lja', 'Lj3g0019388' => 'lja', 'Lj3g0020372' => 'lja', 'Lj4g0028162' => 'lja', 'Lj5P105T57' => 'lonja', 'Lj6g0021716' => 'lja', 'Lj8P243T16' => 'lonja', 'LjContig00141g0016501' => 'lja', 'Lsat_1_v5_gn_3_4481' => 'lsa', 'Lsat_1_v5_gn_5_151380' => 'lsa', 'Lsat_1_v5_gn_5_177181' => 'lsa', 'Lsat_1_v5_gn_6_79001' => 'lsa', 'Lsat_1_v5_gn_8_109721' => 'lsa', 'Lsat_1_v5_gn_9_15361' => 'lsa', 'Manes.01G069900' => 'mes', 'Manes.02G013832' => 'mes', 'Manes.02G029800' => 'mes', 'Manes.05G026800' => 'mes', 'Manes.08G167900' => 'mes', 'Manes.09G121500' => 'mes', 'Mapoly0214s0006' => 'mpo', 'MBI03_g02695_MAGBIO' => 'mbi', 'MBI03_g34958_MAGBIO' => 'mbi', 'MBI07_g11387_MAGBIO' => 'mbi', 'MBI09_g02145_MAGBIO' => 'mbi', 'MBI11_g11980_MAGBIO' => 'mbi', 'MBI15_g31035_MAGBIO' => 'mbi', 'MD00G1122700' => 'mdo', 'MD01G1074500' => 'mdo', 'MD04G1070700' => 'mdo', 'MD04G1178000' => 'mdo', 'MD06G1098600' => 'mdo', 'MD07G1143400' => 'mdo', 'MD12G1193600' => 'mdo', 'MD14G1117800' => 'mdo', 'Medtr3g010800' => 'mtr', 'Medtr3g062840' => 'mtr', 'Medtr5g075750' => 'mtr', 'Medtr7g074120' => 'mtr', 'Medtr8g028165' => 'mtr', 'Medtr8g099170' => 'mtr', 'Medtr8g099180' => 'mtr', 'Medtr8g461170' => 'mtr', 'MELO3C005614.2' => 'cme', 'MELO3C016318.2' => 'cme', 'MELO3C021169.2' => 'cme', 'MELO3C025259.2' => 'cme', 'Migut.A00691' => 'egut', 'Migut.A00896' => 'egut', 'Migut.B01825' => 'egut', 'Migut.D00802' => 'egut', 'Migut.E01181' => 'egut', 'Migut.E01182' => 'egut', 'Migut.J00011' => 'egut', 'Migut.N01568' => 'egut', 'MSTRG.10198' => 'ama', 'MSTRG.11942' => 'ama', 'MSTRG.12033' => 'ama', 'MSTRG.17314' => 'ama', 'MSTRG.1909' => 'ama', 'Nitab4.5_0000195g0060' => 'nta', 'Nitab4.5_0000195g0080' => 'nta', 'Nitab4.5_0000195g0100' => 'nta', 'Nitab4.5_0000305g0250' => 'nta', 'Nitab4.5_0001203g0010' => 'nta', 'Nitab4.5_0001629g0030' => 'nta', 'Nitab4.5_0001714g0040' => 'nta', 'Nitab4.5_0003037g0120' => 'nta', 'Nitab4.5_0003559g0010' => 'nta', 'Nitab4.5_0003559g0020' => 'nta', 'Nitab4.5_0003559g0030' => 'nta', 'Nitab4.5_0003559g0050' => 'nta', 'Nitab4.5_0004009g0010' => 'nta', 'Nitab4.5_0004613g0030' => 'nta', 'Nitab4.5_0018862g0010' => 'nta', 'Nn3g17113' => 'nnu', 'Nn4g23021' => 'nnu', 'Nn6g34324' => 'nnu', 'Nn7g37365' => 'nnu', 'Oeu003350.1' => 'oeu', 'Oeu007819.1' => 'oeu', 'Oeu007841.1' => 'oeu', 'Oeu021146.1' => 'oeu', 'Oeu026928.2' => 'oeu', 'Oeu041728.1' => 'oeu', 'Oeu056819.1' => 'oeu', 'Oeu063056.1' => 'oeu', 'Oeu063657.1' => 'oeu', 'Oeu063659.1' => 'oeu', 'Os06g0158800' => 'osa', 'Os11g0118600' => 'osa', 'Os12g0117800' => 'osa', 'Peaxi162Scf00074g00142' => 'pax', 'Peaxi162Scf00374g00043' => 'pax', 'Peaxi162Scf00424g00034' => 'pax', 'Peaxi162Scf00455g00122' => 'pax', 'Peaxi162Scf00455g00129' => 'pax', 'Peaxi162Scf00455g01310' => 'pax', 'Peaxi162Scf00732g10014' => 'pax', 'Peaxi162Scf01012g00026' => 'pax', 'PGR004G2073' => 'pgr', 'PGR031G0037' => 'pgr', 'PGR031G0286' => 'pgr', 'PGR031G2654' => 'pgr', 'PGR031G2938' => 'pgr', 'PGSC0003DMG400000087' => 'stu', 'PGSC0003DMG400001880' => 'stu', 'PGSC0003DMG400017579' => 'stu', 'PGSC0003DMG400017580' => 'stu', 'PGSC0003DMG400022733' => 'stu', 'PGSC0003DMG400027699' => 'stu', 'Phvul.002G295100' => 'pvu', 'Phvul.005G012300' => 'pvu', 'Phvul.006G081000' => 'pvu', 'Phvul.008G079000' => 'pvu', 'Phvul.008G243900' => 'pvu', 'Phvul.010G059500' => 'pvu', 'Phvul.010G108600' => 'pvu', 'Potri.001G096000' => 'ptr', 'Potri.001G112800' => 'ptr', 'Potri.002G166900' => 'ptr', 'Potri.003G119400' => 'ptr', 'Potri.003G135400' => 'ptr', 'Potri.006G111700' => 'ptr', 'Potri.014G094000' => 'ptr', 'Potri.016G141100' => 'ptr', 'Pp3c12_19020' => 'ppa', 'Pp3c4_14390' => 'ppa', 'Prupe.2G182600' => 'ppe', 'Prupe.5G087200' => 'ppe', 'Prupe.5G112200' => 'ppe', 'Prupe.6G297900' => 'ppe', 'Psat0s1896g0080' => 'psa', 'Psat2g048960' => 'psa', 'Psat3g117640' => 'psa', 'Psat4g158480' => 'psa', 'Psat5g145720' => 'psa', 'Psat7g028520' => 'psa', 'PSO135G0832' => 'pso', 'PSO339G2038' => 'pso', 'PSO384G0391' => 'pso', 'PSO384G2441' => 'pso', 'PSO478G3211' => 'pso', 'PSO782G0673' => 'pso', 'QL01p023758' => 'qlo', 'QL02p031937' => 'qlo', 'QL04p059752' => 'qlo', 'QL07p031337' => 'qlo', 'RcHm_v2.0_Chr1g0358561' => 'rch', 'RcHm_v2.0_Chr3g0459851' => 'rch', 'RcHm_v2.0_Chr7g0195831' => 'rch', 'RcHm_v2.0_Chr7g0199881' => 'rch', 'RcHm_v2.0_Chr7g0207381' => 'rch', 'Rhsim02G0239500' => 'rsi', 'Rhsim05G0233600' => 'rsi', 'Rhsim07G0007800' => 'rsi', 'Rhsim07G0096400' => 'rsi', 'Sabra01G0071600' => 'sbr', 'Sabra01G0071800' => 'sbr', 'Sabra01G0086200' => 'sbr', 'Sabra02G0144700' => 'sbr', 'Sabra03G0083400' => 'sbr', 'Sabra03G0097600' => 'sbr', 'Sabra04G0157500' => 'sbr', 'Sabra06G0086900' => 'sbr', 'Sabra14G0068600' => 'sbr', 'SalBow1G8355' => 'sbo', 'SalBow3G3545' => 'sbo', 'SalBow6G5805' => 'sbo', 'SalBow8G1101' => 'sbo', 'SalBow8G2934' => 'sbo', 'Sc01g0003040' => 'sci', 'Sc01g0008900' => 'sci', 'Sc20g0007260' => 'sci', 'Sed0000463' => 'sed', 'Sed0004189' => 'sed', 'Sed0007202' => 'sed', 'Sed0011353' => 'sed', 'Sed0015825' => 'sed', 'Sed0026024' => 'sed', 'SEGI_04224' => 'sgi', 'SEGI_14671' => 'sgi', 'SEGI_23505' => 'sgi', 'SEGI_31571' => 'sgi', 'SEGI_31978' => 'sgi', 'SEGI_32714' => 'sgi', 'SGA_v2.0_scaffold111G31450' => 'sas', 'SGA_v2.0_scaffold11G05712' => 'sas', 'SGA_v2.0_scaffold146G36213' => 'sas', 'SGA_v2.0_scaffold173G39111' => 'sas', 'SGA_v2.0_scaffold173G39115' => 'sas', 'SGA_v2.0_scaffold196G40905' => 'sas', 'SGA_v2.0_scaffold20G09283' => 'sas', 'SGA_v2.0_scaffold240G44058' => 'sas', 'SGA_v2.0_scaffold4G02261' => 'sas', 'SGA_v2.0_scaffold54G19458' => 'sas', 'SHI12949' => 'shi', 'SMO144G0176' => 'smo', 'SMO202G0083' => 'smo', 'Solyc01g095440.2' => 'sly', 'Solyc04g055100.1' => 'sly', 'Solyc06g060510.2' => 'sly', 'Solyc06g060520.1' => 'sly', 'Solyc08g080070.1' => 'sly', 'Solyc08g081850.1' => 'sly', 'Solyc10g074820.1' => 'sly', 'Sopen01g039190' => 'spe', 'Sopen04g024950' => 'spe', 'Sopen06g020630' => 'spe', 'Sopen06g020640' => 'spe', 'Sopen08g028420' => 'spe', 'Sopen08g030160' => 'spe', 'Sopen10g027310' => 'spe', 'Sp2g01600' => 'spa', 'Sp3g07050' => 'spa', 'Sp6g00970' => 'spa', 'Sp6g05560' => 'spa', 'Sp7g20970' => 'spa', 'Sp7g21650' => 'spa', 'TAR629G1219' => 'tar', 'TAR629G2411' => 'tar', 'TAR633G2690' => 'tar', 'TAR636G2615' => 'tar', 'THA.LOC104801383' => 'tha', 'THA.LOC104806250' => 'tha', 'THA.LOC104806357' => 'tha', 'THA.LOC104806655' => 'tha', 'THA.LOC104814149' => 'tha', 'THA.LOC104814855' => 'tha', 'THA.LOC104816648' => 'tha', 'THA.LOC104818249' => 'tha', 'Thecc.01G348700' => 'tca', 'Thecc.02G366500' => 'tca', 'Thecc.03G268100' => 'tca', 'Thecc.03G290900' => 'tca', 'Thecc.04G147500' => 'tca', 'Thhalv10022271m.g' => 'esa', 'Thhalv10023570m.g' => 'esa', 'Thhalv10025754m.g' => 'esa', 'Thhalv10027461m.g' => 'esa', 'Thhalv10029239m.g' => 'esa', 'Thhalv10029314m.g' => 'esa', 'TPR.G13824' => 'tpr', 'TPR.G21275' => 'tpr', 'TPR.G24340' => 'tpr', 'TPR.G30731' => 'tpr', 'TPR.G3390' => 'tpr', 'TPR.G5097' => 'tpr', 'TWI14G0124' => 'twi', 'TWI53G0866' => 'twi', 'TWI59G0335' => 'twi', 'TWI60G0074' => 'twi', 'TWI77G0634' => 'twi', 'unitig_0.g216' => 'ugi', 'unitig_578.g16489' => 'ugi', 'unitig_60.g25715' => 'ugi', 'unitig_747.g21438' => 'ugi', 'vmacro13203' => 'vma', 'VMungo0251G2934' => 'vmu', 'VMungo0331G0033' => 'vmu', 'VMungo0331G1312' => 'vmu', 'VMungo0540G2340' => 'vmu', 'VMungo0647G1489' => 'vmu', 'VMungo1080G1895' => 'vmu', 'VMungo1383G0927' => 'vmu', 'Zm00001eb093870' => 'zma', 'Zm00001eb271210' => 'zma', 'Zm00001eb376180' => 'zma', 'Zm00001eb405790' => 'zma' ) $gf_id = 'HOM05D001031' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001031' ) $data_identifier = 'HOM05D001031' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 8, 'ach' => (int) 4, 'amhyb' => (int) 5, 'aly' => (int) 8, 'aox' => (int) 4, 'arhy' => (int) 6, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 5, 'bca' => (int) 14, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 8, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 19, 'fve' => (int) 7, 'gma' => (int) 14, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 1, 'han' => (int) 13, 'cav' => (int) 5, 'hma' => (int) 4, 'vpl' => (int) 3, 'lal' => (int) 12, 'lja' => (int) 7, 'lonja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 8, 'mtr' => (int) 8, 'cme' => (int) 4, 'egut' => (int) 8, 'ama' => (int) 5, 'nta' => (int) 15, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 3, 'pax' => (int) 8, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 7, 'ptr' => (int) 8, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 9, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 10, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 7, 'spe' => (int) 7, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 8, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb405790' $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